mirror of
https://github.com/NGSolve/netgen.git
synced 2024-11-12 00:59:16 +05:00
1244 lines
46 KiB
C++
1244 lines
46 KiB
C++
#ifdef NG_PYTHON
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#include <regex>
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#include <../general/ngpython.hpp>
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#include <core/python_ngcore.hpp>
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#include "python_mesh.hpp"
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#include <mystdlib.h>
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#include "meshing.hpp"
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// #include <csg.hpp>
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// #include <geometry2d.hpp>
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#include <../interface/writeuser.hpp>
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#ifdef NG_MPI4PY
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#include <mpi4py.h>
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struct mpi4py_comm {
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mpi4py_comm() = default;
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mpi4py_comm(MPI_Comm value) : value(value) {}
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operator MPI_Comm () { return value; }
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MPI_Comm value;
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};
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namespace pybind11 { namespace detail {
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template <> struct type_caster<mpi4py_comm> {
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public:
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PYBIND11_TYPE_CASTER(mpi4py_comm, _("mpi4py_comm"));
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// Python -> C++
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bool load(handle src, bool) {
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PyObject *py_src = src.ptr();
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// Check that we have been passed an mpi4py communicator
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if (PyObject_TypeCheck(py_src, &PyMPIComm_Type)) {
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// Convert to regular MPI communicator
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value.value = *PyMPIComm_Get(py_src);
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} else {
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return false;
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}
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return !PyErr_Occurred();
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}
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// C++ -> Python
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static handle cast(mpi4py_comm src,
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return_value_policy /* policy */,
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handle /* parent */)
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{
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// Create an mpi4py handle
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return PyMPIComm_New(src.value);
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}
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};
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}} // namespace pybind11::detail
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#endif // NG_MPI4PY
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using namespace netgen;
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extern const char *ngscript[];
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namespace netgen
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{
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extern bool netgen_executable_started;
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extern shared_ptr<NetgenGeometry> ng_geometry;
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extern void Optimize2d (Mesh & mesh, MeshingParameters & mp);
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}
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void TranslateException (const NgException & ex)
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{
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string err = string("Netgen exception: ")+ex.What();
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PyErr_SetString(PyExc_RuntimeError, err.c_str());
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}
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static Transformation<3> global_trafo(Vec<3> (0,0,0));
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DLL_HEADER void ExportNetgenMeshing(py::module &m)
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{
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#ifdef NG_MPI4PY
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import_mpi4py();
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#endif // NG_MPI4PY
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py::register_exception<NgException>(m, "NgException");
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m.attr("_netgen_executable_started") = py::cast(netgen::netgen_executable_started);
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string script;
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const char ** hcp = ngscript;
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while (*hcp)
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script += *hcp++;
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m.attr("_ngscript") = py::cast(script);
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m.def("_GetStatus", []()
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{
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MyStr s; double percent;
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GetStatus(s, percent);
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return py::make_tuple(s.c_str(), percent);
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});
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m.def("_PushStatus", [](string s) { PushStatus(MyStr(s)); });
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m.def("_SetThreadPercentage", [](double percent) { SetThreadPercent(percent); });
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py::class_<NgMPI_Comm> (m, "MPI_Comm")
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#ifdef NG_MPI4PY
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.def(py::init([] (mpi4py_comm comm)
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{
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return NgMPI_Comm(comm);
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}))
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#endif // NG_MPI4PY
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.def_property_readonly ("rank", &NgMPI_Comm::Rank)
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.def_property_readonly ("size", &NgMPI_Comm::Size)
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.def("Barrier", &NgMPI_Comm::Barrier)
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#ifdef PARALLEL
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.def("WTime", [](NgMPI_Comm & c) { return MPI_Wtime(); })
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#else
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.def("WTime", [](NgMPI_Comm & c) { return -1.0; })
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#endif
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.def("Sum", [](NgMPI_Comm & c, double x) { return c.AllReduce(x, MPI_SUM); })
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.def("Min", [](NgMPI_Comm & c, double x) { return c.AllReduce(x, MPI_MIN); })
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.def("Max", [](NgMPI_Comm & c, double x) { return c.AllReduce(x, MPI_MAX); })
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.def("Sum", [](NgMPI_Comm & c, int x) { return c.AllReduce(x, MPI_SUM); })
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.def("Min", [](NgMPI_Comm & c, int x) { return c.AllReduce(x, MPI_MIN); })
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.def("Max", [](NgMPI_Comm & c, int x) { return c.AllReduce(x, MPI_MAX); })
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.def("Sum", [](NgMPI_Comm & c, size_t x) { return c.AllReduce(x, MPI_SUM); })
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.def("Min", [](NgMPI_Comm & c, size_t x) { return c.AllReduce(x, MPI_MIN); })
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.def("Max", [](NgMPI_Comm & c, size_t x) { return c.AllReduce(x, MPI_MAX); })
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.def("SubComm", [](NgMPI_Comm & c, std::vector<int> proc_list) {
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Array<int> procs(proc_list.size());
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for (int i = 0; i < procs.Size(); i++)
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{ procs[i] = proc_list[i]; }
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if (!procs.Contains(c.Rank()))
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{ throw Exception("rank "+ToString(c.Rank())+" not in subcomm"); }
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return c.SubCommunicator(procs);
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}, py::arg("procs"));
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;
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#ifdef NG_MPI4PY
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py::implicitly_convertible<mpi4py_comm, NgMPI_Comm>();
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#endif // NG_MPI4PY
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py::class_<NGDummyArgument>(m, "NGDummyArgument")
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.def("__bool__", []( NGDummyArgument &self ) { return false; } )
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;
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py::class_<Point<2>> (m, "Point2d")
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.def(py::init<double,double>())
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.def ("__str__", &ToString<Point<2>>)
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.def(py::self-py::self)
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.def(py::self+Vec<2>())
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.def(py::self-Vec<2>())
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.def("__getitem__", [](Point<2>& self, int index) { return self[index]; })
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;
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py::class_<Point<3>> (m, "Point3d")
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.def(py::init<double,double,double>())
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.def ("__str__", &ToString<Point<3>>)
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.def(py::self-py::self)
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.def(py::self+Vec<3>())
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.def(py::self-Vec<3>())
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.def("__getitem__", [](Point<2>& self, int index) { return self[index]; })
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;
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m.def("Pnt", [](double x, double y, double z)
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{ return global_trafo(Point<3>(x,y,z)); });
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m.def("Pnt", [](double x, double y) { return Point<2>(x,y); });
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m.def("Pnt", [](py::array_t<double> np_array)
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{
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int dim = np_array.size();
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if(!(dim == 2 || dim == 3))
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throw Exception("Invalid dimension of input array!");
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if(dim == 2)
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return py::cast(Point<2>(np_array.at(0),
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np_array.at(1)));
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return py::cast(global_trafo(Point<3>(np_array.at(0),
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np_array.at(1),
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np_array.at(2))));
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});
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py::class_<Vec<2>> (m, "Vec2d")
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.def(py::init<double,double>())
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.def ("__str__", &ToString<Vec<3>>)
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.def(py::self==py::self)
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.def(py::self+py::self)
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.def(py::self-py::self)
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.def(-py::self)
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.def(double()*py::self)
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.def(py::self*double())
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.def("Norm", &Vec<2>::Length)
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.def("__getitem__", [](Vec<2>& vec, int index) { return vec[index]; })
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.def("__len__", [](Vec<2>& /*unused*/) { return 2; })
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;
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py::class_<Vec<3>> (m, "Vec3d")
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.def(py::init<double,double,double>())
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.def ("__str__", &ToString<Vec<3>>)
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.def(py::self==py::self)
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.def(py::self+py::self)
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.def(py::self-py::self)
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.def(-py::self)
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.def(double()*py::self)
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.def(py::self*double())
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.def("Norm", &Vec<3>::Length)
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.def("__getitem__", [](Vec<3>& vec, int index) { return vec[index]; })
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.def("__len__", [](Vec<3>& /*unused*/) { return 3; })
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;
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m.def ("Vec", FunctionPointer
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([] (double x, double y, double z) { return global_trafo(Vec<3>(x,y,z)); }));
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m.def("Vec", [](py::array_t<double> np_array)
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{
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int dim = np_array.size();
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if(!(dim == 2 || dim == 3))
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throw Exception("Invalid dimension of input array!");
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if(dim == 2)
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return py::cast(Vec<2>(np_array.at(0),
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np_array.at(1)));
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return py::cast(global_trafo(Vec<3>(np_array.at(0),
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np_array.at(1),
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np_array.at(2))));
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});
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m.def ("Vec", FunctionPointer
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([] (double x, double y) { return Vec<2>(x,y); }));
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py::class_<Transformation<3>> (m, "Trafo")
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.def(py::init<Vec<3>>(), "a translation")
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.def(py::init<Point<3>,Vec<3>,double>(), "a rotation given by point on axes, direction of axes, angle")
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.def("__mul__", [](Transformation<3> a, Transformation<3> b)->Transformation<3>
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{ Transformation<3> res; res.Combine(a,b); return res; })
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.def("__call__", [] (Transformation<3> trafo, Point<3> p) { return trafo(p); })
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;
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m.def ("GetTransformation", [] () { return global_trafo; });
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m.def ("SetTransformation", [] (Transformation<3> trafo) { global_trafo = trafo; });
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m.def ("SetTransformation",
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[](int dir, double angle)
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{
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if (dir > 0)
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global_trafo.SetAxisRotation (dir, angle*M_PI/180);
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else
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global_trafo = Transformation<3> (Vec<3>(0,0,0));
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},
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py::arg("dir")=int(0), py::arg("angle")=int(0));
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m.def ("SetTransformation",
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[](Point<3> p0, Vec<3> ex, Vec<3> ey, Vec<3> ez)
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{
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Point<3> pnts[4];
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pnts[0] = p0;
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pnts[1] = p0 + ex;
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pnts[2] = p0 + ey;
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pnts[3] = p0 + ez;
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global_trafo = Transformation<3> (pnts);
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},
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py::arg("p0"), py::arg("ex"), py::arg("ey"), py::arg("ez"));
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py::class_<PointIndex>(m, "PointId")
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.def(py::init<int>())
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.def("__repr__", &ToString<PointIndex>)
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.def("__str__", &ToString<PointIndex>)
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.def_property_readonly("nr", &PointIndex::operator int)
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.def("__eq__" , FunctionPointer( [](PointIndex &self, PointIndex &other)
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{ return static_cast<int>(self)==static_cast<int>(other); }) )
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.def("__hash__" , FunctionPointer( [](PointIndex &self ) { return static_cast<int>(self); }) )
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;
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py::class_<ElementIndex>(m, "ElementId3D")
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.def(py::init<int>())
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.def("__repr__", &ToString<ElementIndex>)
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.def("__str__", &ToString<ElementIndex>)
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.def_property_readonly("nr", &ElementIndex::operator int)
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.def("__eq__" , FunctionPointer( [](ElementIndex &self, ElementIndex &other)
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{ return static_cast<int>(self)==static_cast<int>(other); }) )
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.def("__hash__" , FunctionPointer( [](ElementIndex &self ) { return static_cast<int>(self); }) )
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;
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py::class_<SurfaceElementIndex>(m, "ElementId2D")
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.def(py::init<int>())
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.def("__repr__", &ToString<SurfaceElementIndex>)
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.def("__str__", &ToString<SurfaceElementIndex>)
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.def_property_readonly("nr", &SurfaceElementIndex::operator int)
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.def("__eq__" , FunctionPointer( [](SurfaceElementIndex &self, SurfaceElementIndex &other)
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{ return static_cast<int>(self)==static_cast<int>(other); }) )
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.def("__hash__" , FunctionPointer( [](SurfaceElementIndex &self ) { return static_cast<int>(self); }) )
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;
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py::class_<SegmentIndex>(m, "ElementId1D")
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.def(py::init<int>())
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.def("__repr__", &ToString<SegmentIndex>)
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.def("__str__", &ToString<SegmentIndex>)
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.def_property_readonly("nr", &SegmentIndex::operator int)
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.def("__eq__" , FunctionPointer( [](SegmentIndex &self, SegmentIndex &other)
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{ return static_cast<int>(self)==static_cast<int>(other); }) )
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.def("__hash__" , FunctionPointer( [](SegmentIndex &self ) { return static_cast<int>(self); }) )
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;
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/*
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py::class_<Point<3>> ("Point")
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.def(py::init<double,double,double>())
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;
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*/
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py::class_<MeshPoint /* ,py::bases<Point<3>> */ >(m, "MeshPoint")
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.def(py::init<Point<3>>())
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.def("__str__", &ToString<MeshPoint>)
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.def("__repr__", &ToString<MeshPoint>)
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.def_property_readonly("p", [](const MeshPoint & self)
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{
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py::list l;
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l.append ( py::cast(self[0]) );
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l.append ( py::cast(self[1]) );
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l.append ( py::cast(self[2]) );
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return py::tuple(l);
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})
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.def("__getitem__", [](const MeshPoint & self, int index) {
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if(index<0 || index>2)
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throw py::index_error();
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return self[index];
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})
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.def("__setitem__", [](MeshPoint & self, int index, double val) {
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if(index<0 || index>2)
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throw py::index_error();
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self(index) = val;
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})
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;
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py::class_<Element>(m, "Element3D")
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.def(py::init([](int index, std::vector<PointIndex> vertices)
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{
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int np = vertices.size();
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ELEMENT_TYPE et;
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switch (np)
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{
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case 4: et = TET; break;
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case 5: et = PYRAMID; break;
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case 6: et = PRISM; break;
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case 8: et = HEX; break;
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case 10: et = TET10; break;
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case 13: et = PYRAMID13; break;
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case 15: et = PRISM15; break;
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case 20: et = HEX20; break;
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default:
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throw Exception ("no Element3D with " + ToString(np) +
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" points");
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}
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auto newel = new Element(et);
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for(int i=0; i<np; i++)
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(*newel)[i] = vertices[i];
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newel->SetIndex(index);
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return newel;
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}),
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py::arg("index")=1,py::arg("vertices"),
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"create volume element"
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)
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.def("__repr__", &ToString<Element>)
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.def_property("index", &Element::GetIndex, &Element::SetIndex)
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.def_property("curved", &Element::IsCurved, &Element::SetCurved)
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.def_property_readonly("vertices",
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FunctionPointer ([](const Element & self) -> py::list
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{
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py::list li;
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for (int i = 0; i < self.GetNV(); i++)
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li.append (py::cast(self[i]));
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return li;
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}))
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.def_property_readonly("points",
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FunctionPointer ([](const Element & self) -> py::list
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{
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py::list li;
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for (int i = 0; i < self.GetNP(); i++)
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li.append (py::cast(self[i]));
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return li;
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}))
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;
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py::class_<Element2d>(m, "Element2D")
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.def(py::init ([](int index, std::vector<PointIndex> vertices)
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{
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Element2d * newel = nullptr;
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if (vertices.size() == 3)
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{
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newel = new Element2d(TRIG);
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for (int i = 0; i < 3; i++)
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(*newel)[i] = vertices[i];
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newel->SetIndex(index);
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}
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else if (vertices.size() == 4)
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{
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newel = new Element2d(QUAD);
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for (int i = 0; i < 4; i++)
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(*newel)[i] = vertices[i];
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newel->SetIndex(index);
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}
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else if (vertices.size() == 6)
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{
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newel = new Element2d(TRIG6);
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for(int i = 0; i<6; i++)
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(*newel)[i] = vertices[i];
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newel->SetIndex(index);
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}
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else if (vertices.size() == 8)
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{
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newel = new Element2d(QUAD8);
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for(int i = 0; i<8; i++)
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(*newel)[i] = vertices[i];
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newel->SetIndex(index);
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}
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else
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throw NgException("Inconsistent number of vertices in Element2D");
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return newel;
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}),
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py::arg("index")=1,py::arg("vertices"),
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"create surface element"
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)
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.def_property("index", &Element2d::GetIndex, &Element2d::SetIndex)
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.def_property("curved", &Element2d::IsCurved, &Element2d::SetCurved)
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.def_property_readonly("vertices",
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FunctionPointer([](const Element2d & self) -> py::list
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{
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py::list li;
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for (int i = 0; i < self.GetNV(); i++)
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li.append(py::cast(self[i]));
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return li;
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}))
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.def_property_readonly("points",
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FunctionPointer ([](const Element2d & self) -> py::list
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{
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py::list li;
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for (int i = 0; i < self.GetNP(); i++)
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li.append (py::cast(self[i]));
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return li;
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}))
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;
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py::class_<Segment>(m, "Element1D")
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.def(py::init([](py::list vertices, py::list surfaces, int index, int edgenr)
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{
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Segment * newel = new Segment();
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for (int i = 0; i < 2; i++)
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(*newel)[i] = py::extract<PointIndex>(vertices[i])();
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newel -> si = index;
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newel -> edgenr = edgenr;
|
|
newel -> epgeominfo[0].edgenr = edgenr;
|
|
newel -> epgeominfo[1].edgenr = edgenr;
|
|
// needed for codim2 in 3d
|
|
newel -> edgenr = index;
|
|
if (len(surfaces))
|
|
{
|
|
newel->surfnr1 = py::extract<int>(surfaces[0])();
|
|
newel->surfnr2 = py::extract<int>(surfaces[1])();
|
|
}
|
|
return newel;
|
|
}),
|
|
py::arg("vertices"),
|
|
py::arg("surfaces")=py::list(),
|
|
py::arg("index")=1,
|
|
py::arg("edgenr")=1,
|
|
"create segment element"
|
|
)
|
|
.def("__repr__", &ToString<Segment>)
|
|
.def_property_readonly("vertices",
|
|
FunctionPointer ([](const Segment & self) -> py::list
|
|
{
|
|
py::list li;
|
|
for (int i = 0; i < 2; i++)
|
|
li.append (py::cast(self[i]));
|
|
return li;
|
|
}))
|
|
.def_property_readonly("points",
|
|
FunctionPointer ([](const Segment & self) -> py::list
|
|
{
|
|
py::list li;
|
|
for (int i = 0; i < self.GetNP(); i++)
|
|
li.append (py::cast(self[i]));
|
|
return li;
|
|
}))
|
|
.def_property_readonly("surfaces",
|
|
FunctionPointer ([](const Segment & self) -> py::list
|
|
{
|
|
py::list li;
|
|
li.append (py::cast(self.surfnr1));
|
|
li.append (py::cast(self.surfnr2));
|
|
return li;
|
|
}))
|
|
.def_property_readonly("index", FunctionPointer([](const Segment &self) -> size_t
|
|
{
|
|
return self.si;
|
|
}))
|
|
.def_property_readonly("edgenr", FunctionPointer([](const Segment & self) -> size_t
|
|
{
|
|
return self.edgenr;
|
|
}))
|
|
;
|
|
|
|
|
|
py::class_<Element0d>(m, "Element0D")
|
|
.def(py::init([](PointIndex vertex, int index)
|
|
{
|
|
Element0d * instance = new Element0d;
|
|
instance->pnum = vertex;
|
|
instance->index = index;
|
|
return instance;
|
|
}),
|
|
py::arg("vertex"),
|
|
py::arg("index")=1,
|
|
"create point element"
|
|
)
|
|
.def("__repr__", &ToString<Element0d>)
|
|
.def_property_readonly("vertices",
|
|
FunctionPointer ([](const Element0d & self) -> py::list
|
|
{
|
|
py::list li;
|
|
li.append (py::cast(self.pnum));
|
|
return li;
|
|
}))
|
|
;
|
|
|
|
|
|
|
|
|
|
|
|
py::class_<FaceDescriptor>(m, "FaceDescriptor")
|
|
.def(py::init<const FaceDescriptor&>())
|
|
.def(py::init([](int surfnr, int domin, int domout, int bc)
|
|
{
|
|
FaceDescriptor * instance = new FaceDescriptor();
|
|
instance->SetSurfNr(surfnr);
|
|
instance->SetDomainIn(domin);
|
|
instance->SetDomainOut(domout);
|
|
instance->SetBCProperty(bc);
|
|
return instance;
|
|
}),
|
|
py::arg("surfnr")=1,
|
|
py::arg("domin")=1,
|
|
py::arg("domout")=py::int_(0),
|
|
py::arg("bc")=py::int_(0),
|
|
"create facedescriptor")
|
|
.def("__str__", &ToString<FaceDescriptor>)
|
|
.def("__repr__", &ToString<FaceDescriptor>)
|
|
.def_property("surfnr", &FaceDescriptor::SurfNr, &FaceDescriptor::SetSurfNr)
|
|
.def_property("domin", &FaceDescriptor::DomainIn, &FaceDescriptor::SetDomainIn)
|
|
.def_property("domout", &FaceDescriptor::DomainOut, &FaceDescriptor::SetDomainOut)
|
|
.def_property("bc", &FaceDescriptor::BCProperty, &FaceDescriptor::SetBCProperty)
|
|
.def_property("bcname",
|
|
[](FaceDescriptor & self) -> string { return self.GetBCName(); },
|
|
[](FaceDescriptor & self, string name) { self.SetBCName(new string(name)); } // memleak
|
|
)
|
|
.def_property("color", &FaceDescriptor::SurfColour, &FaceDescriptor::SetSurfColour )
|
|
;
|
|
|
|
|
|
|
|
ExportArray<Element,size_t>(m);
|
|
ExportArray<Element2d,SurfaceElementIndex>(m);
|
|
ExportArray<Segment,size_t>(m);
|
|
ExportArray<Element0d>(m);
|
|
ExportArray<MeshPoint,PointIndex>(m);
|
|
ExportArray<FaceDescriptor>(m);
|
|
|
|
py::implicitly_convertible< int, PointIndex>();
|
|
|
|
py::class_<NetgenGeometry, shared_ptr<NetgenGeometry>> (m, "NetgenGeometry", py::dynamic_attr())
|
|
;
|
|
|
|
py::class_<Mesh,shared_ptr<Mesh>>(m, "Mesh")
|
|
// .def(py::init<>("create empty mesh"))
|
|
|
|
.def(py::init( [] (int dim, NgMPI_Comm comm)
|
|
{
|
|
auto mesh = make_shared<Mesh>();
|
|
mesh->SetCommunicator(comm);
|
|
mesh -> SetDimension(dim);
|
|
SetGlobalMesh(mesh); // for visualization
|
|
mesh -> SetGeometry (nullptr);
|
|
return mesh;
|
|
} ),
|
|
py::arg("dim")=3, py::arg("comm")=NgMPI_Comm{}
|
|
)
|
|
.def(NGSPickle<Mesh>())
|
|
.def_property_readonly("comm", [](const Mesh & amesh) -> NgMPI_Comm
|
|
{ return amesh.GetCommunicator(); },
|
|
"MPI-communicator the Mesh lives in")
|
|
/*
|
|
.def("__init__",
|
|
[](Mesh *instance, int dim)
|
|
{
|
|
new (instance) Mesh();
|
|
instance->SetDimension(dim);
|
|
},
|
|
py::arg("dim")=3
|
|
)
|
|
*/
|
|
|
|
.def_property_readonly("_timestamp", &Mesh::GetTimeStamp)
|
|
.def_property_readonly("ne", [](Mesh& m) { return m.GetNE(); })
|
|
.def("Distribute", [](shared_ptr<Mesh> self, NgMPI_Comm comm) {
|
|
self->SetCommunicator(comm);
|
|
if(comm.Size()==1) return self;
|
|
// if(MyMPI_GetNTasks(comm)==2) throw NgException("Sorry, cannot handle communicators with NP=2!");
|
|
// cout << " rank " << MyMPI_GetId(comm) << " of " << MyMPI_GetNTasks(comm) << " called Distribute " << endl;
|
|
if(comm.Rank()==0) self->Distribute();
|
|
else self->SendRecvMesh();
|
|
return self;
|
|
}, py::arg("comm"))
|
|
.def_static("Receive", [](NgMPI_Comm comm) -> shared_ptr<Mesh> {
|
|
auto mesh = make_shared<Mesh>();
|
|
mesh->SetCommunicator(comm);
|
|
mesh->SendRecvMesh();
|
|
return mesh;
|
|
}, py::arg("comm"))
|
|
.def("Load", FunctionPointer
|
|
([](shared_ptr<Mesh> self, const string & filename)
|
|
{
|
|
|
|
auto comm = self->GetCommunicator();
|
|
int id = comm.Rank();
|
|
int ntasks = comm.Size();
|
|
auto & mesh = self;
|
|
|
|
{
|
|
ifstream infile(filename.c_str());
|
|
if(!infile.good())
|
|
throw NgException(string("Error opening file ") + filename);
|
|
}
|
|
|
|
if ( filename.find(".vol") == string::npos )
|
|
{
|
|
if(ntasks>1)
|
|
throw NgException("Not sure what to do with this?? Does this work with MPI??");
|
|
mesh->SetCommunicator(comm);
|
|
ReadFile(*mesh,filename.c_str());
|
|
//mesh->SetGlobalH (mparam.maxh);
|
|
//mesh->CalcLocalH();
|
|
return;
|
|
}
|
|
|
|
istream * infile;
|
|
NgArray<char> buf; // for distributing geometry!
|
|
int strs;
|
|
|
|
if( id == 0) {
|
|
|
|
if (filename.substr (filename.length()-3, 3) == ".gz")
|
|
infile = new igzstream (filename.c_str());
|
|
else
|
|
infile = new ifstream (filename.c_str());
|
|
mesh -> Load(*infile);
|
|
|
|
// make string from rest of file (for geometry info!)
|
|
// (this might be empty, in which case we take the global ng_geometry)
|
|
stringstream geom_part;
|
|
geom_part << infile->rdbuf();
|
|
string geom_part_string = geom_part.str();
|
|
strs = geom_part_string.size();
|
|
// buf = new char[strs];
|
|
buf.SetSize(strs);
|
|
memcpy(&buf[0], geom_part_string.c_str(), strs*sizeof(char));
|
|
|
|
delete infile;
|
|
|
|
if (ntasks > 1)
|
|
{
|
|
|
|
char * weightsfilename = new char [filename.size()+1];
|
|
strcpy (weightsfilename, filename.c_str());
|
|
weightsfilename[strlen (weightsfilename)-3] = 'w';
|
|
weightsfilename[strlen (weightsfilename)-2] = 'e';
|
|
weightsfilename[strlen (weightsfilename)-1] = 'i';
|
|
|
|
ifstream weightsfile(weightsfilename);
|
|
delete [] weightsfilename;
|
|
|
|
if (!(weightsfile.good()))
|
|
{
|
|
// cout << "regular distribute" << endl;
|
|
mesh -> Distribute();
|
|
}
|
|
else
|
|
{
|
|
char str[20];
|
|
bool endfile = false;
|
|
int n, dummy;
|
|
|
|
NgArray<int> segment_weights;
|
|
NgArray<int> surface_weights;
|
|
NgArray<int> volume_weights;
|
|
|
|
while (weightsfile.good() && !endfile)
|
|
{
|
|
weightsfile >> str;
|
|
|
|
if (strcmp (str, "edgeweights") == 0)
|
|
{
|
|
weightsfile >> n;
|
|
segment_weights.SetSize(n);
|
|
for (int i = 0; i < n; i++)
|
|
weightsfile >> dummy >> segment_weights[i];
|
|
}
|
|
|
|
if (strcmp (str, "surfaceweights") == 0)
|
|
{
|
|
weightsfile >> n;
|
|
surface_weights.SetSize(n);
|
|
for (int i=0; i<n; i++)
|
|
weightsfile >> dummy >> surface_weights[i];
|
|
}
|
|
|
|
if (strcmp (str, "volumeweights") == 0)
|
|
{
|
|
weightsfile >> n;
|
|
volume_weights.SetSize(n);
|
|
for (int i=0; i<n; i++)
|
|
weightsfile >> dummy >> volume_weights[i];
|
|
}
|
|
|
|
if (strcmp (str, "endfile") == 0)
|
|
endfile = true;
|
|
}
|
|
|
|
mesh -> Distribute(volume_weights, surface_weights, segment_weights);
|
|
}
|
|
} // ntasks>1 end
|
|
} // id==0 end
|
|
else {
|
|
mesh->SendRecvMesh();
|
|
}
|
|
|
|
if(ntasks>1) {
|
|
#ifdef PARALLEL
|
|
/** Scatter the geometry-string (no dummy-implementation in mpi_interface) **/
|
|
int strs = buf.Size();
|
|
MyMPI_Bcast(strs, comm);
|
|
if(strs>0)
|
|
MyMPI_Bcast(buf, comm);
|
|
#endif
|
|
}
|
|
|
|
shared_ptr<NetgenGeometry> geo;
|
|
if(buf.Size()) { // if we had geom-info in the file, take it
|
|
istringstream geom_infile(string((const char*)&buf[0], buf.Size()));
|
|
geo = geometryregister.LoadFromMeshFile(geom_infile);
|
|
}
|
|
if(geo!=nullptr) mesh->SetGeometry(geo);
|
|
else if(ng_geometry!=nullptr) mesh->SetGeometry(ng_geometry);
|
|
}),py::call_guard<py::gil_scoped_release>())
|
|
// static_cast<void(Mesh::*)(const string & name)>(&Mesh::Load))
|
|
.def("Save", static_cast<void(Mesh::*)(const string & name)const>(&Mesh::Save),py::call_guard<py::gil_scoped_release>())
|
|
.def("Export",
|
|
[] (Mesh & self, string filename, string format)
|
|
{
|
|
if (WriteUserFormat (format, self, /* *self.GetGeometry(), */ filename))
|
|
{
|
|
string err = string ("nothing known about format")+format;
|
|
NgArray<const char*> names, extensions;
|
|
RegisterUserFormats (names, extensions);
|
|
err += "\navailable formats are:\n";
|
|
for (auto name : names)
|
|
err += string("'") + name + "'\n";
|
|
throw NgException (err);
|
|
}
|
|
},
|
|
py::arg("filename"), py::arg("format"),py::call_guard<py::gil_scoped_release>())
|
|
|
|
.def_property("dim", &Mesh::GetDimension, &Mesh::SetDimension)
|
|
|
|
.def("Elements3D",
|
|
static_cast<Array<Element>&(Mesh::*)()> (&Mesh::VolumeElements),
|
|
py::return_value_policy::reference)
|
|
|
|
.def("Elements2D",
|
|
static_cast<Array<Element2d,SurfaceElementIndex>&(Mesh::*)()> (&Mesh::SurfaceElements),
|
|
py::return_value_policy::reference)
|
|
|
|
.def("Elements1D",
|
|
static_cast<Array<Segment>&(Mesh::*)()> (&Mesh::LineSegments),
|
|
py::return_value_policy::reference)
|
|
|
|
.def("Elements0D", FunctionPointer([] (Mesh & self) -> Array<Element0d>&
|
|
{
|
|
return self.pointelements;
|
|
} ),
|
|
py::return_value_policy::reference)
|
|
|
|
.def("Points",
|
|
static_cast<Mesh::T_POINTS&(Mesh::*)()> (&Mesh::Points),
|
|
py::return_value_policy::reference)
|
|
|
|
.def("FaceDescriptor", static_cast<FaceDescriptor&(Mesh::*)(int)> (&Mesh::GetFaceDescriptor),
|
|
py::return_value_policy::reference)
|
|
.def("GetNFaceDescriptors", &Mesh::GetNFD)
|
|
|
|
.def("GetVolumeNeighboursOfSurfaceElement", [](Mesh & self, size_t sel)
|
|
{
|
|
int elnr1, elnr2;
|
|
self.GetTopology().GetSurface2VolumeElement(sel+1, elnr1, elnr2);
|
|
return py::make_tuple(elnr1, elnr2);
|
|
}, "Returns element nrs of volume element connected to surface element, -1 if no volume element")
|
|
|
|
.def("GetNCD2Names", &Mesh::GetNCD2Names)
|
|
|
|
|
|
.def("__getitem__", [](const Mesh & self, PointIndex id) { return self[id]; })
|
|
.def("__getitem__", [](const Mesh & self, ElementIndex id) { return self[id]; })
|
|
.def("__getitem__", [](const Mesh & self, SurfaceElementIndex id) { return self[id]; })
|
|
.def("__getitem__", [](const Mesh & self, SegmentIndex id) { return self[id]; })
|
|
|
|
.def("__setitem__", [](Mesh & self, PointIndex id, const MeshPoint & mp) { return self[id] = mp; })
|
|
|
|
.def ("Add", [](Mesh & self, MeshPoint p)
|
|
{
|
|
return self.AddPoint (Point3d(p));
|
|
})
|
|
|
|
.def ("Add", [](Mesh & self, const Element & el)
|
|
{
|
|
return self.AddVolumeElement (el);
|
|
})
|
|
|
|
.def ("Add", [](Mesh & self, const Element2d & el)
|
|
{
|
|
return self.AddSurfaceElement (el);
|
|
})
|
|
|
|
.def ("Add", [](Mesh & self, const Segment & el)
|
|
{
|
|
return self.AddSegment (el);
|
|
})
|
|
|
|
.def ("Add", [](Mesh & self, const Element0d & el)
|
|
{
|
|
return self.pointelements.Append (el);
|
|
})
|
|
|
|
.def ("Add", [](Mesh & self, const FaceDescriptor & fd)
|
|
{
|
|
return self.AddFaceDescriptor (fd);
|
|
})
|
|
|
|
.def ("DeleteSurfaceElement",
|
|
[](Mesh & self, SurfaceElementIndex i)
|
|
{
|
|
return self.Delete(i);
|
|
})
|
|
|
|
.def ("Compress", [](Mesh & self)
|
|
{
|
|
return self.Compress ();
|
|
} ,py::call_guard<py::gil_scoped_release>())
|
|
|
|
.def ("AddRegion", [] (Mesh & self, string name, int dim) -> int
|
|
{
|
|
auto & regionnames = self.GetRegionNamesCD(self.GetDimension()-dim);
|
|
regionnames.Append (new string(name));
|
|
int idx = regionnames.Size();
|
|
if (dim == 2)
|
|
{
|
|
FaceDescriptor fd;
|
|
fd.SetBCName(regionnames.Last());
|
|
fd.SetBCProperty(idx);
|
|
self.AddFaceDescriptor(fd);
|
|
}
|
|
return idx;
|
|
}, py::arg("name"), py::arg("dim"))
|
|
|
|
.def ("SetBCName", &Mesh::SetBCName)
|
|
.def ("GetBCName", FunctionPointer([](Mesh & self, int bc)->string
|
|
{ return self.GetBCName(bc); }))
|
|
.def ("SetMaterial", &Mesh::SetMaterial)
|
|
.def ("GetMaterial", FunctionPointer([](Mesh & self, int domnr)
|
|
{ return string(self.GetMaterial(domnr)); }))
|
|
|
|
.def ("GetCD2Name", &Mesh::GetCD2Name)
|
|
.def ("SetCD2Name", &Mesh::SetCD2Name)
|
|
|
|
.def ("GetCD3Name", &Mesh::GetCD3Name)
|
|
.def ("SetCD3Name", &Mesh::SetCD3Name)
|
|
|
|
.def ("AddPointIdentification", [](Mesh & self, py::object pindex1, py::object pindex2, int identnr, int type)
|
|
{
|
|
if(py::extract<PointIndex>(pindex1).check() && py::extract<PointIndex>(pindex2).check())
|
|
{
|
|
self.GetIdentifications().Add (py::extract<PointIndex>(pindex1)(), py::extract<PointIndex>(pindex2)(), identnr);
|
|
self.GetIdentifications().SetType(identnr, Identifications::ID_TYPE(type)); // type = 2 ... periodic
|
|
}
|
|
},
|
|
//py::default_call_policies(),
|
|
py::arg("pid1"),
|
|
py::arg("pid2"),
|
|
py::arg("identnr"),
|
|
py::arg("type"))
|
|
.def("IdentifyPeriodicBoundaries", &Mesh::IdentifyPeriodicBoundaries,
|
|
py::arg("face1"), py::arg("face2"), py::arg("mapping"), py::arg("point_tolerance") = -1.)
|
|
.def("GetNrIdentifications", [](Mesh& self)
|
|
{
|
|
return self.GetIdentifications().GetMaxNr();
|
|
})
|
|
.def ("CalcLocalH", &Mesh::CalcLocalH)
|
|
.def ("SetMaxHDomain", [] (Mesh& self, py::list maxhlist)
|
|
{
|
|
NgArray<double> maxh;
|
|
for(auto el : maxhlist)
|
|
maxh.Append(py::cast<double>(el));
|
|
self.SetMaxHDomain(maxh);
|
|
})
|
|
.def ("GenerateVolumeMesh",
|
|
[](Mesh & self, MeshingParameters* pars,
|
|
py::kwargs kwargs)
|
|
{
|
|
MeshingParameters mp;
|
|
if(pars) mp = *pars;
|
|
{
|
|
py::gil_scoped_acquire acquire;
|
|
CreateMPfromKwargs(mp, kwargs);
|
|
}
|
|
MeshVolume (mp, self);
|
|
OptimizeVolume (mp, self);
|
|
}, py::arg("mp")=nullptr,
|
|
meshingparameter_description.c_str(),
|
|
py::call_guard<py::gil_scoped_release>())
|
|
|
|
.def ("OptimizeVolumeMesh", [](Mesh & self, MeshingParameters* pars)
|
|
{
|
|
MeshingParameters mp;
|
|
if(pars) mp = *pars;
|
|
else mp.optsteps3d = 5;
|
|
OptimizeVolume (mp, self);
|
|
}, py::arg("mp"), py::call_guard<py::gil_scoped_release>())
|
|
|
|
.def ("OptimizeMesh2d", [](Mesh & self)
|
|
{
|
|
self.CalcLocalH(0.5);
|
|
MeshingParameters mp;
|
|
mp.optsteps2d = 5;
|
|
Optimize2d (self, mp);
|
|
},py::call_guard<py::gil_scoped_release>())
|
|
|
|
.def ("Refine", FunctionPointer
|
|
([](Mesh & self)
|
|
{
|
|
self.GetGeometry()->GetRefinement().Refine(self);
|
|
self.UpdateTopology();
|
|
}),py::call_guard<py::gil_scoped_release>())
|
|
|
|
.def ("SecondOrder", FunctionPointer
|
|
([](Mesh & self)
|
|
{
|
|
self.GetGeometry()->GetRefinement().MakeSecondOrder(self);
|
|
}))
|
|
|
|
.def ("GetGeometry", [] (Mesh& self) { return self.GetGeometry(); })
|
|
.def ("SetGeometry", [](Mesh & self, shared_ptr<NetgenGeometry> geo)
|
|
{
|
|
self.SetGeometry(geo);
|
|
})
|
|
|
|
/*
|
|
.def ("SetGeometry", FunctionPointer
|
|
([](Mesh & self, shared_ptr<CSGeometry> geo)
|
|
{
|
|
self.SetGeometry(geo);
|
|
}))
|
|
*/
|
|
|
|
.def ("BuildSearchTree", &Mesh::BuildElementSearchTree,py::call_guard<py::gil_scoped_release>())
|
|
|
|
.def ("BoundaryLayer", [](Mesh & self, variant<string, int> boundary,
|
|
variant<double, py::list> thickness,
|
|
variant<string, py::list> material,
|
|
variant<string, int> domain, bool outside,
|
|
bool grow_edges)
|
|
{
|
|
BoundaryLayerParameters blp;
|
|
if(int* bc = get_if<int>(&boundary); bc)
|
|
{
|
|
for (int i = 1; i <= self.GetNFD(); i++)
|
|
if(self.GetFaceDescriptor(i).BCProperty() == *bc)
|
|
blp.surfid.Append (i);
|
|
}
|
|
else
|
|
{
|
|
regex pattern(*get_if<string>(&boundary));
|
|
for(int i = 1; i<=self.GetNFD(); i++)
|
|
{
|
|
auto& fd = self.GetFaceDescriptor(i);
|
|
if(regex_match(fd.GetBCName(), pattern))
|
|
{
|
|
auto dom_pattern = get_if<string>(&domain);
|
|
// only add if adjacent to domain
|
|
if(dom_pattern)
|
|
{
|
|
regex pattern(*dom_pattern);
|
|
if(regex_match(self.GetMaterial(fd.DomainIn()), pattern) || (fd.DomainOut() > 0 ? regex_match(self.GetMaterial(fd.DomainOut()), pattern) : false))
|
|
blp.surfid.Append(i);
|
|
}
|
|
else
|
|
blp.surfid.Append(i);
|
|
}
|
|
}
|
|
}
|
|
|
|
if(double* pthickness = get_if<double>(&thickness); pthickness)
|
|
{
|
|
blp.heights.Append(*pthickness);
|
|
}
|
|
else
|
|
{
|
|
auto thicknesses = *get_if<py::list>(&thickness);
|
|
for(auto val : thicknesses)
|
|
blp.heights.Append(val.cast<double>());
|
|
}
|
|
|
|
auto prismlayers = blp.heights.Size();
|
|
auto first_new_mat = self.GetNDomains() + 1;
|
|
auto max_dom_nr = first_new_mat;
|
|
if(string* pmaterial = get_if<string>(&material); pmaterial)
|
|
{
|
|
self.SetMaterial(first_new_mat, *pmaterial);
|
|
for(auto i : Range(prismlayers))
|
|
blp.new_matnrs.Append(first_new_mat);
|
|
}
|
|
else
|
|
{
|
|
auto materials = *get_if<py::list>(&material);
|
|
if(py::len(materials) != prismlayers)
|
|
throw Exception("Length of thicknesses and materials must be same!");
|
|
for(auto i : Range(prismlayers))
|
|
{
|
|
self.SetMaterial(first_new_mat+i, materials[i].cast<string>());
|
|
blp.new_matnrs.Append(first_new_mat + i);
|
|
}
|
|
max_dom_nr += prismlayers-1;
|
|
}
|
|
|
|
blp.domains.SetSize(max_dom_nr + 1); // one based
|
|
blp.domains.Clear();
|
|
if(string* pdomain = get_if<string>(&domain); pdomain)
|
|
{
|
|
regex pattern(*pdomain);
|
|
for(auto i : Range(1, first_new_mat))
|
|
if(regex_match(self.GetMaterial(i), pattern))
|
|
blp.domains.SetBit(i);
|
|
}
|
|
else
|
|
{
|
|
auto idomain = *get_if<int>(&domain);
|
|
blp.domains.SetBit(idomain);
|
|
}
|
|
// bits for new domains must be set
|
|
if(!outside)
|
|
for(auto i : Range(first_new_mat, max_dom_nr+1))
|
|
blp.domains.SetBit(i);
|
|
|
|
blp.outside = outside;
|
|
blp.grow_edges = grow_edges;
|
|
|
|
GenerateBoundaryLayer (self, blp);
|
|
self.UpdateTopology();
|
|
}, py::arg("boundary"), py::arg("thickness"), py::arg("material"),
|
|
py::arg("domains") = ".*", py::arg("outside") = false,
|
|
py::arg("grow_edges") = false,
|
|
R"delimiter(
|
|
Add boundary layer to mesh.
|
|
|
|
Parameters
|
|
----------
|
|
|
|
boundary : string or int
|
|
Boundary name or number.
|
|
|
|
thickness : float or List[float]
|
|
Thickness of boundary layer(s).
|
|
|
|
material : str or List[str]
|
|
Material name of boundary layer(s).
|
|
|
|
domain : str or int
|
|
Regexp for domain boundarylayer is going into.
|
|
|
|
outside : bool = False
|
|
If true add the layer on the outside
|
|
|
|
grow_edges : bool = False
|
|
Grow boundary layer over edges.
|
|
|
|
)delimiter")
|
|
|
|
.def ("EnableTable", [] (Mesh & self, string name, bool set)
|
|
{
|
|
if (name == "edges")
|
|
const_cast<MeshTopology&>(self.GetTopology()).SetBuildEdges(set);
|
|
if (name == "faces")
|
|
const_cast<MeshTopology&>(self.GetTopology()).SetBuildFaces(set);
|
|
},
|
|
py::arg("name"), py::arg("set")=true)
|
|
|
|
.def ("Scale", [](Mesh & self, double factor)
|
|
{
|
|
for(auto i = 0; i<self.GetNP();i++)
|
|
self.Point(i).Scale(factor);
|
|
})
|
|
.def ("Copy", [](Mesh & self)
|
|
{
|
|
auto m2 = make_shared<Mesh> ();
|
|
*m2 = self;
|
|
return m2;
|
|
})
|
|
.def ("CalcMinMaxAngle", [](Mesh & self, double badel_limit)
|
|
{
|
|
double values[4];
|
|
self.CalcMinMaxAngle (badel_limit, values);
|
|
py::dict res;
|
|
res["trig"] = py::make_tuple( values[0], values[1] );
|
|
res["tet"] = py::make_tuple( values[2], values[3] );
|
|
return res;
|
|
}, py::arg("badelement_limit")=175.0)
|
|
.def ("Update", [](Mesh & self)
|
|
{
|
|
self.SetNextTimeStamp();
|
|
})
|
|
.def ("CalcTotalBadness", &Mesh::CalcTotalBad)
|
|
.def ("GetQualityHistogram", &Mesh::GetQualityHistogram)
|
|
;
|
|
|
|
m.def("ImportMesh", [](const string& filename)
|
|
{
|
|
auto mesh = make_shared<Mesh>();
|
|
ReadFile(*mesh, filename);
|
|
return mesh;
|
|
}, py::arg("filename"),
|
|
R"delimiter(Import mesh from other file format, supported file formats are:
|
|
Neutral format (*.mesh, *.emt)
|
|
Surface file (*.surf)
|
|
Universal format (*.unv)
|
|
Olaf format (*.emt)
|
|
Tet format (*.tet)
|
|
Pro/ENGINEER format (*.fnf)
|
|
)delimiter");
|
|
py::enum_<MESHING_STEP>(m,"MeshingStep")
|
|
.value("ANALYSE", MESHCONST_ANALYSE)
|
|
.value("MESHEDGES", MESHCONST_MESHEDGES)
|
|
.value("MESHSURFACE", MESHCONST_OPTSURFACE)
|
|
.value("MESHVOLUME", MESHCONST_OPTVOLUME)
|
|
;
|
|
|
|
typedef MeshingParameters MP;
|
|
auto mp = py::class_<MP> (m, "MeshingParameters")
|
|
.def(py::init<>())
|
|
.def(py::init([](MeshingParameters* other, py::kwargs kwargs)
|
|
{
|
|
MeshingParameters mp;
|
|
if(other) mp = *other;
|
|
CreateMPfromKwargs(mp, kwargs, false);
|
|
return mp;
|
|
}), py::arg("mp")=nullptr, meshingparameter_description.c_str())
|
|
.def("__str__", &ToString<MP>)
|
|
.def("RestrictH", FunctionPointer
|
|
([](MP & mp, double x, double y, double z, double h)
|
|
{
|
|
mp.meshsize_points.Append ( MeshingParameters::MeshSizePoint (Point<3> (x,y,z), h));
|
|
}),
|
|
py::arg("x"), py::arg("y"), py::arg("z"), py::arg("h")
|
|
)
|
|
;
|
|
|
|
m.def("SetTestoutFile", FunctionPointer ([] (const string & filename)
|
|
{
|
|
delete testout;
|
|
testout = new ofstream (filename);
|
|
}));
|
|
|
|
m.def("SetMessageImportance", FunctionPointer ([] (int importance)
|
|
{
|
|
int old = printmessage_importance;
|
|
printmessage_importance = importance;
|
|
return old;
|
|
}));
|
|
|
|
|
|
m.def("ReadCGNSFile", &ReadCGNSFile, py::arg("filename"), py::arg("base")=1, "Read mesh and solution vectors from CGNS file");
|
|
|
|
py::class_<SurfaceGeometry, NetgenGeometry, shared_ptr<SurfaceGeometry>> (m, "SurfaceGeometry")
|
|
.def(py::init<>())
|
|
.def(py::init([](py::object pyfunc)
|
|
{
|
|
std::function<Vec<3> (Point<2>)> func = [pyfunc](Point<2> p)
|
|
{
|
|
py::gil_scoped_acquire aq;
|
|
py::tuple pyres = py::extract<py::tuple>(pyfunc(p[0],p[1],0.0)) ();
|
|
return Vec<3>(py::extract<double>(pyres[0])(),py::extract<double>(pyres[1])(),py::extract<double>(pyres[2])());
|
|
};
|
|
auto geo = make_shared<SurfaceGeometry>(func);
|
|
return geo;
|
|
}), py::arg("mapping"))
|
|
.def(NGSPickle<SurfaceGeometry>())
|
|
.def("GenerateMesh", [](shared_ptr<SurfaceGeometry> geo,
|
|
bool quads, int nx, int ny, bool flip_triangles, py::list py_bbbpts, py::list py_bbbnames)
|
|
{
|
|
if (py::len(py_bbbpts) != py::len(py_bbbnames))
|
|
throw Exception("In SurfaceGeometry::GenerateMesh bbbpts and bbbnames do not have same lengths.");
|
|
Array<Point<3>> bbbpts(py::len(py_bbbpts));
|
|
Array<string> bbbname(py::len(py_bbbpts));
|
|
for(int i = 0; i<py::len(py_bbbpts);i++)
|
|
{
|
|
py::tuple pnt = py::extract<py::tuple>(py_bbbpts[i])();
|
|
bbbpts[i] = Point<3>(py::extract<double>(pnt[0])(),py::extract<double>(pnt[1])(),py::extract<double>(pnt[2])());
|
|
bbbname[i] = py::extract<string>(py_bbbnames[i])();
|
|
}
|
|
auto mesh = make_shared<Mesh>();
|
|
SetGlobalMesh (mesh);
|
|
mesh->SetGeometry(geo);
|
|
ng_geometry = geo;
|
|
auto result = geo->GenerateMesh (mesh, quads, nx, ny, flip_triangles, bbbpts, bbbname);
|
|
if(result != 0)
|
|
throw Exception("SurfaceGeometry: Meshing failed!");
|
|
return mesh;
|
|
}, py::arg("quads")=true, py::arg("nx")=10, py::arg("ny")=10, py::arg("flip_triangles")=false, py::arg("bbbpts")=py::list(), py::arg("bbbnames")=py::list())
|
|
;
|
|
;
|
|
}
|
|
|
|
PYBIND11_MODULE(libmesh, m) {
|
|
ExportNetgenMeshing(m);
|
|
}
|
|
#endif
|
|
|
|
|
|
|
|
|